Strain identifier

BacDive ID: 133832

Type strain: Yes

Species: Chryseobacterium rigui

Strain Designation: CJ16

Strain history: C.-J. Cha CJ16.

NCBI tax ID(s): 1132696 (species)

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General

@ref: 30625

BacDive-ID: 133832

keywords: 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped

description: Chryseobacterium rigui CJ16 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from estuarine water.

NCBI tax id

  • NCBI tax id: 1132696
  • Matching level: species

strain history

  • @ref: 67770
  • history: C.-J. Cha CJ16.

doi: 10.13145/bacdive133832.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Weeksellaceae
  • genus: Chryseobacterium
  • species: Chryseobacterium rigui
  • full scientific name: Chryseobacterium rigui Park et al. 2013

@ref: 30625

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Chryseobacterium

species: Chryseobacterium rigui

strain designation: CJ16

type strain: yes

Morphology

cell morphology

  • @ref: 30625
  • gram stain: negative
  • cell length: 2 µm
  • cell width: 0.65 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 30625
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30625positivegrowth05-37
30625positiveoptimum30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
30625positivegrowth05-09alkaliphile
30625positiveoptimum6

Physiology and metabolism

oxygen tolerance

  • @ref: 30625
  • oxygen tolerance: aerobe

spore formation

  • @ref: 30625
  • spore formation: no

halophily

  • @ref: 30625
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

@refobservation
30625aggregates in clumps
67770quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30625620642,3-butanediol+carbon source
3062530089acetate+carbon source
3062516449alanine+carbon source
3062540585alpha-cyclodextrin+carbon source
30625286442-oxopentanoate+carbon source
3062522599arabinose+carbon source
3062522653asparagine+carbon source
3062535391aspartate+carbon source
3062517057cellobiose+carbon source
3062523652dextrin+carbon source
3062528757fructose+carbon source
3062517234glucose+carbon source
3062529987glutamate+carbon source
3062515428glycine+carbon source
3062528087glycogen+carbon source
3062517596inosine+carbon source
3062517306maltose+carbon source
3062537684mannose+carbon source
3062537657methyl D-glucoside+carbon source
3062528044phenylalanine+carbon source
3062526271proline+carbon source
3062517272propionate+carbon source
3062517822serine+carbon source
3062530031succinate+carbon source
3062517992sucrose+carbon source
3062526986threonine+carbon source
3062517748thymidine+carbon source
3062553423tween 40+carbon source
3062516704uridine+carbon source
306254853esculin+hydrolysis

enzymes

@refvalueactivityec
30625acid phosphatase+3.1.3.2
30625alkaline phosphatase+3.1.3.1
30625catalase+1.11.1.6
30625gelatinase+
30625cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
30625estuarine water
67770Sediment of estuarine wetland of Han RiverRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Brackish
#Environmental#Aquatic#Estuary

taxonmaps

  • @ref: 69479
  • File name: preview.99_28973.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_869;97_4464;98_21612;99_28973&stattab=map
  • Last taxonomy: Chryseobacterium rigui subclade
  • 16S sequence: JQ071497
  • Sequence Identity:
  • Total samples: 550
  • soil counts: 30
  • aquatic counts: 52
  • animal counts: 328
  • plant counts: 140

Sequence information

16S sequences

  • @ref: 30625
  • description: Chryseobacterium rigui strain CJ16 16S ribosomal RNA gene, partial sequence
  • accession: JQ071497
  • length: 1439
  • database: nuccore
  • NCBI tax ID: 1132696

GC content

@refGC-contentmethod
3062537.9
6777037.9high performance liquid chromatography (HPLC)

External links

@ref: 30625

culture collection no.: KACC 16560, JCM 18078

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22707535Chryseobacterium rigui sp. nov., isolated from an estuarine wetland.Park SJ, Choi JH, Cha CJInt J Syst Evol Microbiol10.1099/ijs.0.040519-02012Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Estuaries, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rivers/microbiology, Sequence Analysis, DNA, Spermidine/analogs & derivatives/analysis, Vitamin K 2/analogs & derivatives/analysis, *WetlandsGenetics
Phylogeny28211309Chryseobacterium reticulitermitis sp. nov., isolated from the gut of Reticulitermes aculabialis.Zhao Y, Wang Y, Li DH, Deng Y, Yang HInt J Syst Evol Microbiol10.1099/ijsem.0.0018482017Animals, Bacterial Typing Techniques, Base Composition, China, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Isoptera/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/analogs & derivatives/chemistry, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
30625Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172695628776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/